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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 0
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ), 'gf_id' => 'HOM05D001066', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001066' ), 'data_identifier' => 'HOM05D001066', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001066', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '573', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A04p12150' => 'bna', 'A06p09970' => 'bna', 'A06p40080' => 'bna', 'A09p18020' => 'bna', 'A09p62580' => 'bna', 'A09p65100' => 'bna', 'Aa31LG1G1060' => 'aar', 'Aa31LG1G4520' => 'aar', 'Aa31LG2G10400' => 'aar', 'Aa31LG2G4050' => 'aar', 'Aa31LG9G16560' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.498' => 'aag', 'Actinidia01172' => 'ach', 'Actinidia02722' => 'ach', 'Actinidia08198' => 'ach', 'Actinidia12307' => 'ach', 'Actinidia14056' => 'ach', 'Actinidia19846' => 'ach', 'Actinidia26239' => 'ach', 'Actinidia33232' => 'ach', 'Actinidia38741' => 'ach', 'Ah.02g131800' => 'amhyb', 'Ah.03g134620' => 'amhyb', 'Ah.10g031080' => 'amhyb', 'Ah.10g031830' => 'amhyb', 'AL1G21180' => 'aly', 'AL1G25810' => 'aly', 'AL2G17340' => 'aly', 'AL3G45390' => 'aly', 'AL5G19090' => 'aly', 'AL7G50900' => 'aly', 'Aqoxy3G00838' => 'aox', 'Aqoxy3G03200' => 'aox', 'Aqoxy3G03511' => 'aox', 'arahy.Tifrunner.gnm1.ann1.19VE15' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.31JQSW' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3SLY87' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.4PE6XX' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6E1X4T' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.6SFR66' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A2LG4B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EMB553' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I3KG3W' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NJWU98' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.UU53Z1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.VKZX5F' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.XQ4802' => 'arhy', 'AT1G10410' => 'ath', 'AT1G13970' => 'ath', 'AT1G59650' => 'ath', 'AT3G29180' => 'ath', 'AT5G39430' => 'ath', 'ATR0001G004' => 'atr', 'ATR0730G132' => 'atr', 'Atru.chr11.1707' => 'acertr', 'Atru.chr11.1888' => 'acertr', 'Atru.chr8.1876' => 'acertr', 'Atru.chr8.2455' => 'acertr', 'Atru.chr8.2464' => 'acertr', 'Atru.chr8.337' => 'acertr', 'AUR62005857' => 'cqu', 'AUR62018120' => 'cqu', 'AUR62018325' => 'cqu', 'AUR62026298' => 'cqu', 'AUR62026492' => 'cqu', 'AUR62030562' => 'cqu', 'AUR62032849' => 'cqu', 'AUR62034451' => 'cqu', 'BcaB02g10214' => 'bca', 'BcaB06g27304' => 'bca', 'BcaB06g27328' => 'bca', 'BcaB07g31170' => 'bca', 'BcaB08g34351' => 'bca', 'BcaB08g37347' => 'bca', 'BcaC03g16133' => 'bca', 'BcaC04g22176' => 'bca', 'BcaC05g24888' => 'bca', 'BcaC05g24924' => 'bca', 'BcaC05g25293' => 'bca', 'BcaC05g29532' => 'bca', 'BcaC06g30884' => 'bca', 'BcaC06g33676' => 'bca', 'BcaC07g41611' => 'bca', 'BcaC07g41835' => 'bca', 'BolC4t26166H' => 'bol', 'BolC5t29605H' => 'bol', 'BolC5t29919H' => 'bol', 'BolC7t44330H' => 'bol', 'BolC8t52164H' => 'bol', 'BolC8t52435H' => 'bol', 'BolC9t55161H' => 'bol', 'BraA04t16880Z' => 'bra', 'BraA06t23920Z' => 'bra', 'BraA06t24183Z' => 'bra', 'BraA06t26923Z' => 'bra', 'BraA09t37434Z' => 'bra', 'BraA09t41621Z' => 'bra', 'BraA09t41853Z' => 'bra', 'C04p45800' => 'bna', 'C05p11730' => 'bna', 'C07p38080' => 'bna', 'C08p46140' => 'bna', 'C08p48950' => 'bna', 'C08p49040' => 'bna', 'C09p22420' => 'bna', 'CAN.G1130.1' => 'can', 'CAN.G1638.3' => 'can', 'CAN.G206.181' => 'can', 'CAN.G206.86' => 'can', 'CAN.G27.54' => 'can', 'CAN.G431.10' => 'can', 'CAN.G579.4' => 'can', 'CANSAT07G0002' => 'cansat', 'CANSAT64G0163' => 'cansat', 'CANSAT64G1313' => 'cansat', 'CANSAT64G2091' => 'cansat', 'CARHR010550' => 'chi', 'CARHR014340' => 'chi', 'CARHR053580' => 'chi', 'CARHR053590' => 'chi', 'CARHR152340' => 'chi', 'CARHR262920' => 'chi', 'Carub.0001s0985' => 'cru', 'Carub.0001s1366' => 'cru', 'Carub.0002s0578' => 'cru', 'Carub.0005s0791' => 'cru', 'Ca_04333_v3' => 'car', 'Ca_04685_v3' => 'car', 'Ca_04885_v3' => 'car', 'CBR_g45482' => 'cbr', 'Cc00_g19910' => 'ccan', 'Cc07_g03710' => 'ccan', 'Cc11_g12490' => 'ccan', 'Cc11_g12500' => 'ccan', 'Cc11_g13800' => 'ccan', 'CDE04G0553' => 'cde', 'CDE06G0715' => 'cde', 'CDE06G2313' => 'cde', 'CDE06G2527' => 'cde', 'CDE07G1062' => 'cde', 'Cfa007494' => 'cfa', 'Cfa007601' => 'cfa', 'Cfa008921' => 'cfa', 'Cfa009050' => 'cfa', 'Ciclev10011774m.g' => 'ccl', 'Ciclev10013860m.g' => 'ccl', 'Ciclev10031173m.g' => 'ccl', 'Ciclev10031335m.g' => 'ccl', 'CiPaw.03G021400' => 'cil', 'CiPaw.03G032100' => 'cil', 'CiPaw.05G129100' => 'cil', 'CiPaw.05G142700' => 'cil', 'CiPaw.06G078700' => 'cil', 'ClCG05G024810' => 'cla', 'ClCG09G018510' => 'cla', 'ClCG09G021870' => 'cla', 'ClCG10G015500' => 'cla', 'ClCG11G004560' => 'cla', 'COL.COLO4_12235' => 'col', 'COL.COLO4_27956' => 'col', 'COL.COLO4_36237' => 'col', 'COL.COLO4_36987' => 'col', 'Cpa.g.sc1.75' => 'cpa', 'Cpa.g.sc14.132' => 'cpa', 'Cpa.g.sc5.301' => 'cpa', 'Cre13.g571800' => 'cre', 'CsaV3_2G010850' => 'csa', 'CsaV3_3G040970' => 'csa', 'CsaV3_5G032100' => 'csa', 'CsaV3_5G037730' => 'csa', 'CsaV3_5G038300' => 'csa', 'CSS0005055' => 'camsi', 'CSS0020730' => 'camsi', 'CSS0020871' => 'camsi', 'CSS0024060' => 'camsi', 'CSS0031377' => 'camsi', 'CSS0033287' => 'camsi', 'CSS0044024' => 'camsi', 'CSS0045067' => 'camsi', 'DCAR_006719' => 'dca', 'DCAR_011071' => 'dca', 'DCAR_025389' => 'dca', 'DCAR_031073' => 'dca', 'Dinv11500' => 'din', 'Dinv31150' => 'din', 'Dinv33792' => 'din', 'Dinv34103' => 'din', 'Dinv35000' => 'din', 'Duzib147G0208' => 'dzi', 'Duzib187G1627' => 'dzi', 'Duzib248G1336' => 'dzi', 'Duzib248G1351' => 'dzi', 'Duzib251G0108' => 'dzi', 'Duzib251G0358' => 'dzi', 'Duzib264G1295' => 'dzi', 'ECA232G0552' => 'eca', 'ECA232G2647' => 'eca', 'ECA234G4206' => 'eca', 'ECA234G4254' => 'eca', 'ECA246G0362' => 'eca', 'ECA246G0754' => 'eca', 'ECA246G3045' => 'eca', 'ECA246G4569' => 'eca', 'EL10Ac2g02905' => 'bvu', 'EL10Ac2g03024' => 'bvu', 'EL10Ac6g13116' => 'bvu', 'EL10Ac6g13275' => 'bvu', 'Eucgr.B03190' => 'egr', 'Eucgr.B03395' => 'egr', 'Eucgr.I02000' => 'egr', 'FAN02G1342' => 'fan', 'FAN02G3147' => 'fan', 'FAN05G2810' => 'fan', 'FAN05G4880' => 'fan', 'FAN07G1713' => 'fan', 'FAN07G2741' => 'fan', 'FAN09G2464' => 'fan', 'FAN09G4467' => 'fan', 'FAN12G1137' => 'fan', 'FAN12G3041' => 'fan', 'FAN12G4225' => 'fan', 'FAN14G2547' => 'fan', 'FAN14G3994' => 'fan', 'FAN17G0041' => 'fan', 'FAN22G0686' => 'fan', 'FAN22G0796' => 'fan', 'FvH4_4g30650' => 'fve', 'FvH4_4g35480' => 'fve', 'FvH4_6g47830' => 'fve', 'FvH4_6g49660' => 'fve', 'Glyma.01G039500' => 'gma', 'Glyma.01G053600' => 'gma', 'Glyma.02G025200' => 'gma', 'Glyma.02G111900' => 'gma', 'Glyma.07G227600' => 'gma', 'Glyma.08G240500' => 'gma', 'Glyma.08G294100' => 'gma', 'Glyma.13G066800' => 'gma', 'Glyma.18G128950' => 'gma', 'Glyma.19G017700' => 'gma', 'Glyma.20G028400' => 'gma', 'Gohir.A04G096800' => 'ghi', 'Gohir.A05G320700' => 'ghi', 'Gohir.A07G206900' => 'ghi', 'Gohir.A09G012700' => 'ghi', 'Gohir.A11G068600' => 'ghi', 'Gohir.A11G071000' => 'ghi', 'Gohir.A12G163000' => 'ghi', 'Gohir.A13G078800' => 'ghi', 'Gohir.D04G136600' => 'ghi', 'Gohir.D05G322900' => 'ghi', 'Gohir.D07G213100' => 'ghi', 'Gohir.D09G011533' => 'ghi', 'Gohir.D10G142225' => 'ghi', 'Gohir.D11G072400' => 'ghi', 'Gohir.D11G074900' => 'ghi', 'Gohir.D12G166100' => 'ghi', 'Gohir.D13G078900' => 'ghi', 'Gohir.D13G138000' => 'ghi', 'Gorai.001G241100' => 'gra', 'Gorai.006G013400' => 'gra', 'Gorai.007G078000' => 'gra', 'Gorai.007G080500' => 'gra', 'Gorai.008G178800' => 'gra', 'Gorai.009G346600' => 'gra', 'Gorai.012G106500' => 'gra', 'Gorai.012G120400' => 'gra', 'Gorai.013G090100' => 'gra', 'Gorai.013G154500' => 'gra', 'GSVIVG01011470001' => 'vvi', 'GSVIVG01020116001' => 'vvi', 'GSVIVG01022869001' => 'vvi', 'GSVIVG01032565001' => 'vvi', 'HanXRQChr05g0131601' => 'han', 'HanXRQChr07g0199541' => 'han', 'HanXRQChr09g0263991' => 'han', 'HanXRQChr09g0265691' => 'han', 'HanXRQChr10g0308091' => 'han', 'HanXRQChr11g0346111' => 'han', 'HanXRQChr12g0382371' => 'han', 'HanXRQChr15g0468601' => 'han', 'HanXRQChr15g0474241' => 'han', 'HanXRQChr15g0487761' => 'han', 'HanXRQChr17g0544551' => 'han', 'HanXRQChr17g0546141' => 'han', 'Haze_11950' => 'cav', 'Haze_12083' => 'cav', 'Haze_14488' => 'cav', 'Haze_14605' => 'cav', 'Hma1.2p1_0265F.1_g106440' => 'hma', 'Hma1.2p1_1221F.1_g268130' => 'hma', 'Hma1.2p1_2018F.1_g311200' => 'hma', 'HPP92_010147' => 'vpl', 'HPP92_010153' => 'vpl', 'HPP92_010154' => 'vpl', 'HPP92_014220' => 'vpl', 'HPP92_026478' => 'vpl', 'HPP92_026479' => 'vpl', 'HPP92_026481' => 'vpl', 'Hund06134' => 'sun', 'Hund25202' => 'sun', 'Hund25289' => 'sun', 'Lalb_Chr02g0159131' => 'lal', 'Lalb_Chr02g0159951' => 'lal', 'Lalb_Chr04g0255851' => 'lal', 'Lalb_Chr05g0217461' => 'lal', 'Lalb_Chr06g0175641' => 'lal', 'Lalb_Chr09g0326701' => 'lal', 'Lalb_Chr09g0326711' => 'lal', 'Lalb_Chr10g0098491' => 'lal', 'Lalb_Chr16g0382671' => 'lal', 'Lalb_Chr17g0340911' => 'lal', 'Lalb_Chr21g0319121' => 'lal', 'Lj1g0011066' => 'lja', 'Lj1g0019035' => 'lja', 'Lj2g0000631' => 'lja', 'Lj2g0006085' => 'lja', 'Lj2g0006342' => 'lja', 'Lj2g0017017' => 'lja', 'Lj3C1044G10' => 'lonja', 'Lj4A114T77' => 'lonja', 'Lj6C783G8' => 'lonja', 'Lj6C797T3' => 'lonja', 'Lj7A404G43' => 'lonja', 'Lju41C8G16' => 'lonja', 'Lsat_1_v5_gn_0_15880' => 'lsa', 'Lsat_1_v5_gn_1_80061' => 'lsa', 'Lsat_1_v5_gn_3_50601' => 'lsa', 'Lsat_1_v5_gn_3_99900' => 'lsa', 'Lsat_1_v5_gn_4_10341' => 'lsa', 'Lsat_1_v5_gn_4_169880' => 'lsa', 'Lsat_1_v5_gn_4_180241' => 'lsa', 'Lsat_1_v5_gn_8_160700' => 'lsa', 'Manes.01G031700' => 'mes', 'Manes.01G100700' => 'mes', 'Manes.01G193200' => 'mes', 'Manes.02G049500' => 'mes', 'Manes.05G094800' => 'mes', 'Manes.05G106800' => 'mes', 'Manes.17G024000' => 'mes', 'Mapoly0085s0029' => 'mpo', 'MBI01_g41230_MAGBIO' => 'mbi', 'MBI04_g09742_MAGBIO' => 'mbi', 'MBI10_g00753_MAGBIO' => 'mbi', 'MBI18_g31600_MAGBIO' => 'mbi', 'MCO07G277' => 'mco', 'MD09G1042800' => 'mdo', 'MD09G1056400' => 'mdo', 'MD13G1067700' => 'mdo', 'MD13G1082900' => 'mdo', 'MD16G1066600' => 'mdo', 'MD16G1081800' => 'mdo', 'MD17G1044300' => 'mdo', 'MD17G1053900' => 'mdo', 'Medtr4g069560' => 'mtr', 'Medtr5g037270' => 'mtr', 'Medtr5g042910' => 'mtr', 'Medtr6g009410' => 'mtr', 'Medtr7g011790' => 'mtr', 'MELO3C008526.2' => 'cme', 'MELO3C009832.2' => 'cme', 'MELO3C012045.2' => 'cme', 'MELO3C021483.2' => 'cme', 'MELO3C022012.2' => 'cme', 'Migut.E00123' => 'egut', 'Migut.H00672' => 'egut', 'Migut.H00877' => 'egut', 'Migut.K01300' => 'egut', 'Migut.L01235' => 'egut', 'Migut.L01367' => 'egut', 'MSTRG.13395' => 'ama', 'MSTRG.23913' => 'ama', 'MSTRG.23963' => 'ama', 'MSTRG.3209' => 'ama', 'MSTRG.3340' => 'ama', 'MSTRG.7773' => 'ama', 'Nitab4.5_0000212g0160' => 'nta', 'Nitab4.5_0000391g0050' => 'nta', 'Nitab4.5_0000568g0230' => 'nta', 'Nitab4.5_0000791g0040' => 'nta', 'Nitab4.5_0001239g0100' => 'nta', 'Nitab4.5_0001591g0120' => 'nta', 'Nitab4.5_0001637g0130' => 'nta', 'Nitab4.5_0002265g0050' => 'nta', 'Nitab4.5_0002542g0040' => 'nta', 'Nitab4.5_0003347g0130' => 'nta', 'Nitab4.5_0003975g0030' => 'nta', 'Nitab4.5_0004372g0020' => 'nta', 'Nitab4.5_0004372g0080' => 'nta', 'Nitab4.5_0004857g0010' => 'nta', 'Nitab4.5_0010218g0020' => 'nta', 'Nitab4.5_0013588g0010' => 'nta', 'Nn3g17074' => 'nnu', 'Nn3g17350' => 'nnu', 'Nn4g22988' => 'nnu', 'Nn4g23297' => 'nnu', 'Oeu016234.1' => 'oeu', 'Oeu017306.1' => 'oeu', 'Oeu021182.1' => 'oeu', 'Oeu030569.1' => 'oeu', 'Oeu044546.1' => 'oeu', 'Oeu051716.1' => 'oeu', 'Oeu060584.1' => 'oeu', 'Oeu062094.1' => 'oeu', 'Os03g0693000' => 'osa', 'Os03g0759000' => 'osa', 'Os12g0577600' => 'osa', 'Peaxi162Scf00129g00632' => 'pax', 'Peaxi162Scf00166g01046' => 'pax', 'Peaxi162Scf00209g00937' => 'pax', 'Peaxi162Scf00222g00121' => 'pax', 'Peaxi162Scf00451g00424' => 'pax', 'Peaxi162Scf00629g00318' => 'pax', 'PGR004G2588' => 'pgr', 'PGR102G2242' => 'pgr', 'PGR102G2500' => 'pgr', 'PGR119G2326' => 'pgr', 'PGSC0003DMG400001302' => 'stu', 'PGSC0003DMG400001344' => 'stu', 'PGSC0003DMG400002831' => 'stu', 'PGSC0003DMG400002868' => 'stu', 'PGSC0003DMG400022628' => 'stu', 'PGSC0003DMG400028388' => 'stu', 'PGSC0003DMG402025150' => 'stu', 'Phvul.002G079600' => 'pvu', 'Phvul.002G091300' => 'pvu', 'Phvul.002G103500' => 'pvu', 'Phvul.003G071900' => 'pvu', 'Phvul.004G024000' => 'pvu', 'Phvul.008G039600' => 'pvu', 'Potri.008G190500' => 'ptr', 'Potri.010G040100' => 'ptr', 'Potri.010G163100' => 'ptr', 'Potri.017G074800' => 'ptr', 'Potri.017G088000' => 'ptr', 'PRCOL_00001298' => 'pco', 'Prupe.1G264000' => 'ppe', 'Prupe.1G280600' => 'ppe', 'Prupe.2G317900' => 'ppe', 'Prupe.3G262300' => 'ppe', 'Prupe.3G262500' => 'ppe', 'Prupe.3G275000' => 'ppe', 'Prupe.8G227000' => 'ppe', 'Psat2g115800' => 'psa', 'Psat2g127760' => 'psa', 'Psat3g199000' => 'psa', 'Psat6g239560' => 'psa', 'PSO063G4128' => 'pso', 'PSO161G0083' => 'pso', 'PSO339G1948' => 'pso', 'PSO384G4540' => 'pso', 'PSO478G5136' => 'pso', 'PSO591G0260' => 'pso', 'PSO832G1439' => 'pso', 'QL02p079429' => 'qlo', 'QL02p084976' => 'qlo', 'QL03p066660' => 'qlo', 'QL03p069947' => 'qlo', 'RcHm_v2.0_Chr2g0167031' => 'rch', 'RcHm_v2.0_Chr2g0169681' => 'rch', 'RcHm_v2.0_Chr4g0433211' => 'rch', 'RcHm_v2.0_Chr4g0439051' => 'rch', 'RcHm_v2.0_Chr4g0445131' => 'rch', 'RcHm_v2.0_Chr7g0234381' => 'rch', 'Rhsim06G0129000' => 'rsi', 'Rhsim08G0063800' => 'rsi', 'Rhsim08G0072600' => 'rsi', 'Rhsim12G0127900' => 'rsi', 'Sabra08G0144500' => 'sbr', 'Sabra10G0026900' => 'sbr', 'Sabra10G0124100' => 'sbr', 'Sabra17G0066900' => 'sbr', 'Sabra17G0077800' => 'sbr', 'SalBow1G4330' => 'sbo', 'SalBow7G3484' => 'sbo', 'SalBow8G4482' => 'sbo', 'Sc04g0008630' => 'sci', 'Sc10g0003360' => 'sci', 'Sc10g0004030' => 'sci', 'Sc11g0002200' => 'sci', 'Sed0008501' => 'sed', 'Sed0009788' => 'sed', 'Sed0018449' => 'sed', 'Sed0019721' => 'sed', 'Sed0020764' => 'sed', 'Sed0021877' => 'sed', 'Sed0024663' => 'sed', 'SEGI_03612' => 'sgi', 'SGA_v2.0_scaffold16G07740' => 'sas', 'SGA_v2.0_scaffold205G41751' => 'sas', 'SGA_v2.0_scaffold236G43758' => 'sas', 'SGA_v2.0_scaffold49G18092' => 'sas', 'SGA_v2.0_scaffold4G02428' => 'sas', 'SGA_v2.0_scaffold63G21677' => 'sas', 'SGA_v2.0_scaffold87G26985' => 'sas', 'SHI25631' => 'shi', 'SHI26127' => 'shi', 'SMO143G0089' => 'smo', 'SMO265G0002' => 'smo', 'Solyc02g067040.3' => 'sly', 'Solyc02g087480.4' => 'sly', 'Solyc02g088320.4' => 'sly', 'Solyc03g065200.4' => 'sly', 'Solyc04g005750.1' => 'sly', 'Solyc04g005860.3' => 'sly', 'Solyc05g006660.4' => 'sly', 'Solyc05g012780.4' => 'sly', 'Solyc09g059125.1' => 'sly', 'Sopen02g016230' => 'spe', 'Sopen02g032230' => 'spe', 'Sopen02g033010' => 'spe', 'Sopen03g018510' => 'spe', 'Sopen04g001910' => 'spe', 'Sopen05g002600' => 'spe', 'Sopen05g007600' => 'spe', 'Sp1g09020' => 'spa', 'Sp1g12330' => 'spa', 'Sp2g04900' => 'spa', 'Sp2g17790' => 'spa', 'Sp7g02550' => 'spa', 'TAR144G0002' => 'tar', 'TAR371G0660' => 'tar', 'TAR374G0963' => 'tar', 'TAR383G0747' => 'tar', 'TAR622G0839' => 'tar', 'TAR629G2027' => 'tar', 'TAR629G2620' => 'tar', 'THA.LOC104801811' => 'tha', 'THA.LOC104805488' => 'tha', 'THA.LOC104816730' => 'tha', 'THA.LOC104819759' => 'tha', 'THA.LOC104823011' => 'tha', 'Thecc.02G236400' => 'tca', 'Thecc.02G338700' => 'tca', 'Thecc.04G069000' => 'tca', 'Thecc.04G088300' => 'tca', 'Thhalv10004028m.g' => 'esa', 'Thhalv10007430m.g' => 'esa', 'Thhalv10007496m.g' => 'esa', 'Thhalv10024106m.g' => 'esa', 'Thhalv10028198m.g' => 'esa', 'TPR.G19930' => 'tpr', 'TPR.G26711' => 'tpr', 'TPR.G32585' => 'tpr', 'TPR.G33446' => 'tpr', 'TWI12G0414' => 'twi', 'TWI32G0966' => 'twi', 'TWI60G1217' => 'twi', 'TWI75G0462' => 'twi', 'unitig_62.g23440' => 'ugi', 'unitig_62.g23680' => 'ugi', 'unitig_744.g24343' => 'ugi', 'vmacro01983' => 'vma', 'vmacro05778' => 'vma', 'vmacro16310' => 'vma', 'vmacro18166' => 'vma', 'vmacro18217' => 'vma', 'VMungo0251G3070' => 'vmu', 'VMungo0251G3688' => 'vmu', 'VMungo0464G0379' => 'vmu', 'VMungo1215G1044' => 'vmu', 'VMungo1215G2480' => 'vmu', 'VMungo1215G2794' => 'vmu', 'VMungo1383G1274' => 'vmu', 'Zm00001eb020410' => 'zma', 'Zm00001eb029640' => 'zma', 'Zm00001eb053650' => 'zma', 'Zm00001eb057970' => 'zma', 'Zm00001eb183640' => 'zma', 'Zm00001eb214500' => 'zma', 'Zm00001eb217060' => 'zma', 'Zm00001eb239820' => 'zma', 'Zm00001eb278330' => 'zma' ) $gf_id = 'HOM05D001066' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001066' ) $data_identifier = 'HOM05D001066' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 13, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 9, 'amhyb' => (int) 4, 'aly' => (int) 6, 'aox' => (int) 3, 'arhy' => (int) 13, 'ath' => (int) 5, 'atr' => (int) 2, 'acertr' => (int) 6, 'cqu' => (int) 8, 'bca' => (int) 16, 'bol' => (int) 7, 'bra' => (int) 7, 'can' => (int) 7, 'cansat' => (int) 4, 'chi' => (int) 6, 'cru' => (int) 4, 'car' => (int) 3, 'cbr' => (int) 1, 'ccan' => (int) 5, 'cde' => (int) 5, 'cfa' => (int) 4, 'ccl' => (int) 4, 'cil' => (int) 5, 'cla' => (int) 5, 'col' => (int) 4, 'cpa' => (int) 3, 'cre' => (int) 1, 'csa' => (int) 5, 'camsi' => (int) 8, 'dca' => (int) 4, 'din' => (int) 5, 'dzi' => (int) 7, 'eca' => (int) 8, 'bvu' => (int) 4, 'egr' => (int) 3, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 11, 'ghi' => (int) 18, 'gra' => (int) 10, 'vvi' => (int) 4, 'han' => (int) 12, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 7, 'sun' => (int) 3, 'lal' => (int) 11, 'lja' => (int) 6, 'lonja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 7, 'mpo' => (int) 1, 'mbi' => (int) 4, 'mco' => (int) 1, 'mdo' => (int) 8, 'mtr' => (int) 5, 'cme' => (int) 5, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 16, 'nnu' => (int) 4, 'oeu' => (int) 8, 'osa' => (int) 3, 'pax' => (int) 6, 'pgr' => (int) 4, 'stu' => (int) 7, 'pvu' => (int) 6, 'ptr' => (int) 5, 'pco' => (int) 1, 'ppe' => (int) 7, 'psa' => (int) 4, 'pso' => (int) 7, 'qlo' => (int) 4, 'rch' => (int) 6, 'rsi' => (int) 4, 'sbr' => (int) 5, 'sbo' => (int) 3, 'sci' => (int) 4, 'sed' => (int) 7, 'sgi' => (int) 1, 'sas' => (int) 7, 'shi' => (int) 2, 'smo' => (int) 2, 'sly' => (int) 9, 'spe' => (int) 7, 'spa' => (int) 5, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 4, 'esa' => (int) 5, 'tpr' => (int) 4, 'twi' => (int) 4, 'ugi' => (int) 3, 'vma' => (int) 5, 'vmu' => (int) 7, 'zma' => (int) 9 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb278330' $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